6V3B image
Entry Detail
PDB ID:
6V3B
EMDB ID:
Keywords:
Title:
Cryo-EM structure of the Acinetobacter baumannii Ribosome: 70S in Empty state
Biological Source:
PDB Version:
Deposition Date:
2019-11-25
Release Date:
2020-02-05
Method Details:
Experimental Method:
Resolution:
2.91 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L33
Chain IDs:A (auth: 0)
Chain Length:51
Number of Molecules:1
Biological Source:Acinetobacter sp. CIP 51.11
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L34
Chain IDs:B (auth: 1)
Chain Length:44
Number of Molecules:1
Biological Source:Acinetobacter beijerinckii ANC 3835
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L35
Chain IDs:C (auth: 2)
Chain Length:64
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L36
Chain IDs:D (auth: 3)
Chain Length:38
Number of Molecules:1
Biological Source:Acinetobacter sp. ANC 4470
Polymer Type:polyribonucleotide
Description:23s ribosomal RNA
Chain IDs:E (auth: AN1)
Chain Length:2918
Number of Molecules:1
Biological Source:Acinetobacter baumannii AB0057
Polymer Type:polyribonucleotide
Description:5s ribosomal RNA
Chain IDs:F (auth: B)
Chain Length:115
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L2
Chain IDs:G (auth: C)
Chain Length:274
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L3
Chain IDs:H (auth: D)
Chain Length:212
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L4
Chain IDs:I (auth: E)
Chain Length:165
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L5
Chain IDs:J (auth: F)
Chain Length:127
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L6
Chain IDs:K (auth: G)
Chain Length:177
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L9
Chain IDs:L (auth: H)
Chain Length:131
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L13
Chain IDs:M (auth: I)
Chain Length:142
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L14
Chain IDs:N (auth: J)
Chain Length:122
Number of Molecules:1
Biological Source:Acinetobacter sp. NIPH 899
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L15
Chain IDs:O (auth: K)
Chain Length:146
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L16
Chain IDs:P (auth: L)
Chain Length:137
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L17
Chain IDs:Q (auth: M)
Chain Length:125
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L18
Chain IDs:R (auth: N)
Chain Length:116
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L19
Chain IDs:S (auth: O)
Chain Length:122
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L20
Chain IDs:T (auth: P)
Chain Length:119
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L21
Chain IDs:U (auth: Q)
Chain Length:103
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L22
Chain IDs:V (auth: R)
Chain Length:75
Number of Molecules:1
Biological Source:Acinetobacter sp. 809848
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L23
Chain IDs:W (auth: S)
Chain Length:106
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L24
Chain IDs:X (auth: T)
Chain Length:88
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L25
Chain IDs:Y (auth: U)
Chain Length:98
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L27
Chain IDs:Z (auth: V)
Chain Length:85
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L28
Chain IDs:AA (auth: W)
Chain Length:78
Number of Molecules:1
Biological Source:Acinetobacter rudis CIP 110305
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L29
Chain IDs:BA (auth: X)
Chain Length:65
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L30
Chain IDs:CA (auth: Y)
Chain Length:58
Number of Molecules:1
Biological Source:Acinetobacter sp. CIP 102082
Polymer Type:polypeptide(L)
Description:50S ribosomal protein L32
Chain IDs:DA (auth: Z)
Chain Length:61
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S2
Chain IDs:FA (auth: b)
Chain Length:115
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S3
Chain IDs:GA (auth: c)
Chain Length:274
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S4
Chain IDs:HA (auth: d)
Chain Length:212
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S5
Chain IDs:IA (auth: e)
Chain Length:165
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S6
Chain IDs:JA (auth: f)
Chain Length:127
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S7
Chain IDs:KA (auth: g)
Chain Length:177
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S8
Chain IDs:LA (auth: h)
Chain Length:131
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S9
Chain IDs:MA (auth: i)
Chain Length:142
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S10
Chain IDs:NA (auth: j)
Chain Length:122
Number of Molecules:1
Biological Source:Acinetobacter sp. ANC 5600
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S11
Chain IDs:OA (auth: k)
Chain Length:146
Number of Molecules:1
Biological Source:Acinetobacter sp. 263903-1
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S12
Chain IDs:PA (auth: l)
Chain Length:137
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S13
Chain IDs:QA (auth: m)
Chain Length:125
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S14
Chain IDs:RA (auth: n)
Chain Length:116
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S15
Chain IDs:SA (auth: o)
Chain Length:122
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S16
Chain IDs:TA (auth: p)
Chain Length:119
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S17
Chain IDs:UA (auth: q)
Chain Length:103
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S18
Chain IDs:VA (auth: r)
Chain Length:75
Number of Molecules:1
Biological Source:Acinetobacter venetianus
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S19
Chain IDs:WA (auth: s)
Chain Length:106
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polyribonucleotide
Description:16s Ribosomal RNA
Chain IDs:EA (auth: sN1)
Chain Length:1544
Number of Molecules:1
Biological Source:Acinetobacter baumannii AB0057
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S20
Chain IDs:XA (auth: t)
Chain Length:88
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Description:30S ribosomal protein S21
Chain IDs:YA (auth: u)
Chain Length:98
Number of Molecules:1
Biological Source:Acinetobacter sp. 263903-1
Primary Citation
Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.
Mbio 11 ? ? (2020)
PMID: 31964740 DOI: 10.1128/mBio.03117-19

Abstact

Antimicrobial resistance is a major health threat as it limits treatment options for infection. At the forefront of this serious issue is Acinetobacter baumannii, a Gram-negative opportunistic pathogen that exhibits the remarkable ability to resist antibiotics through multiple mechanisms. As bacterial ribosomes represent a target for multiple distinct classes of existing antimicrobial agents, we here use single-particle cryo-electron microscopy (cryo-EM) to elucidate five different structural states of the A. baumannii ribosome, including the 70S, 50S, and 30S forms. We also determined interparticle motions of the 70S ribosome in different tRNA bound states using three-dimensional (3D) variability analysis. Together, our structural data further our understanding of the ribosome from A. baumannii and other Gram-negative pathogens and will enable structure-based drug discovery to combat antibiotic-resistant bacterial infections.IMPORTANCEAcinetobacter baumannii is a severe nosocomial threat largely due to its intrinsic antibiotic resistance and remarkable ability to acquire new resistance determinants. The bacterial ribosome serves as a major target for modern antibiotics and the design of new therapeutics. Here, we present cryo-EM structures of the A. baumannii 70S ribosome, revealing several unique species-specific structural features that may facilitate future drug development to combat this recalcitrant bacterial pathogen.

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